7D7D | pdb_00007d7d

CryoEM structure of gp45-dependent transcription activation complex

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L [auth I]	SCOP2B Superfamily	DNA clamp	8036423	3000780	SCOP2B (2022-06-29)
L [auth I]	SCOP2B Superfamily	DNA clamp	8036422	3000780	SCOP2B (2022-06-29)
K [auth H]	SCOP2B Superfamily	DNA clamp	8036422	3000780	SCOP2B (2022-06-29)
K [auth H]	SCOP2B Superfamily	DNA clamp	8036423	3000780	SCOP2B (2022-06-29)
J [auth G]	SCOP2B Superfamily	DNA clamp	8036422	3000780	SCOP2B (2022-06-29)
J [auth G]	SCOP2B Superfamily	DNA clamp	8036423	3000780	SCOP2B (2022-06-29)
H [auth K]	SCOP2B Superfamily	Phage late-transcription coactivator-like	8092998	3002656	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
I [auth E]		e7d7dE1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (develop294)
L [auth I]		e7d7dI1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (develop294)
K [auth H]		e7d7dH1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (develop294)
J [auth G]		e7d7dG1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (develop294)
H [auth K]		e7d7dK1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (develop294)
D		e7d7dD1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (develop294)
C		e7d7dC2	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (develop294)
A		e7d7dA1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (develop294)
B		e7d7dB1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F:	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
J [auth G], K [auth H], L [auth I]	PF09116	gp45 sliding clamp, C terminal (gp45-slide_C)	gp45 sliding clamp, C terminal	Members of this family are essential for the interaction of the gp45 sliding clamp with the corresponding polymerase. They adopt a DNA clamp fold, consisting of two alpha helices and two beta sheets - the fold is duplicated and has internal pseudo tw ...	Members of this family are essential for the interaction of the gp45 sliding clamp with the corresponding polymerase. They adopt a DNA clamp fold, consisting of two alpha helices and two beta sheets - the fold is duplicated and has internal pseudo two-fold symmetry [1].	Domain
J [auth G], K [auth H], L [auth I]	PF02916	DNA polymerase processivity factor (DNA_PPF)	DNA polymerase processivity factor		Domain
H [auth K]	PF16805	Phage late-transcription coactivator (Trans_coact)	Phage late-transcription coactivator	This family of proteins is found in Caudovirales. It is a late-transcription coactivator which interacts with the host RNA polymerase forming a part of the initiation complex [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I [auth E]	DNA-directed RNA polymerase subunit omega	-	-	-
J [auth G], K [auth H], L [auth I]	DNA polymerase clamp	enzyme regulator activity DNA polymerase processivity factor activity enzyme activator activity molecular function activator activity molecular function regulator activity	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process viral gene expression viral process viral transcription viral DNA genome replication viral life cycle nucleobase-containing compound biosynthetic process nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process viral gene expression viral process viral transcription viral DNA genome replication viral life cycle nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid biosynthetic process biosynthetic process viral genome replication bidirectional double-stranded viral DNA replication DNA biosynthetic process	-
H [auth K]	RNA polymerase-associated protein Gp33	molecular function activator activity molecular function regulator activity transcription regulator activator activity	viral gene expression late viral transcription viral process viral transcription	-
G [auth N]	DNA (nontemplate strand)	-	-	-
F	gp55	-	-	-
E [auth T]	DNA (template strand)	-	-	-
D	DNA-directed RNA polymerase subunit beta'	-	-	-
C	DNA-directed RNA polymerase subunit beta	-	-	-
A, B	DNA-directed RNA polymerase subunit alpha	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
J [auth G], K [auth H], L [auth I]	IPR046938	DNA clamp superfamily	Homologous Superfamily
J [auth G], K [auth H], L [auth I]	IPR046389	Sliding clamp	Family
J [auth G], K [auth H], L [auth I]	IPR004190	DNA polymerase processivity factor	Domain
J [auth G], K [auth H], L [auth I]	IPR015200	Sliding clamp, C-terminal	Domain
H [auth K]	IPR042071	Phage late-transcription coactivator superfamily	Homologous Superfamily
H [auth K]	IPR046384	Late transcription coactivator, myovirus	Family
H [auth K]	IPR031836	Late transcription coactivator	Family

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.